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Saez-Rodriguez et al. 2009

Discrete logic modeling as a means to link protein signaling networks with functional analysis of mammalian signal transduction

Julio Saez-Rodriguez*, Leonidas G. Alexopoulos*, Jonathan Epperlein, Regina Samaga, Douglas A. Lauffenburger, Steffen Klamt and Peter K. Sorger. Molecular Systems Biology, 5:331, 2009. [* these authors contributed equally to this work].

[html, pdf].

This paper presents the tool CellNetOptimizer.

In this paper we used a set of data collected  in HepG2 cells under different conditions (ligands and inhibitors) to train a Boolean model, and then a second set to validate the model.

The training data set can be found here, and the validation data set can be downloaded here stored as a MIDAS file that can be loaded and processed with DataRail.